|
| Status |
Public on Jan 20, 2005 |
| Title |
1-4-dCy5 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
segregant from BY4716 x wild wine strain
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
segregant from BY4716 x wild wine strain
|
| Extracted molecule |
total RNA |
| Label |
Cy5
|
| |
|
| Channel 2 |
| Source name |
reference pool of BY4716 strain
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
reference pool of BY4716 strain
|
| Extracted molecule |
total RNA |
| Label |
Cy3
|
| |
|
| |
| Description |
RNA from a haploid F1 segregant from a cross between the lab strain BY4716 (isogenic to S288c) and a wild isolate strain from a California vineyard collected by R. Mortimer. The reference sample is RNA from haploid BY4716 and is the same as in Yvert et al. Nat. Genet. 2003.
|
| Data processing |
First compute l = log2(median 635 - median background 635) - log2(median 532 - median background 532). Do this for every spot on chip c. Next compute m, the mean of these l values over all spots on chip c. Now subtract m from every l value on chip c to get the final the VALUE here; if the SAMPLE has Cy5 in the name, -n is the VALUE. NULL indicates missing data due to a misshapen spot (FLAG < 0) or saturated signal.
|
| |
|
| Submission date |
Nov 19, 2004 |
| Last update date |
Jun 27, 2005 |
| Contact name |
Rachel Brem |
| E-mail(s) |
rbrem@fhcrc.org
|
| Phone |
206-667-5659
|
| Fax |
206-667-5978
|
| URL |
http://www.fhcrc.org/labs/kruglyak/index.html
|
| Organization name |
Fred Hutchinson Cancer Research Institute
|
| Department |
Human Biology
|
| Lab |
Kruglyak
|
| Street address |
1100 Fairview Ave. N. D4-100
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platform ID |
GPL118 |
| Series (1) |
| GSE1990 |
Genetic complexity in yeast transcripts |
|
| Data table header descriptions |
| ID_REF |
spot number from platform GPL118 (yeast cDNA arrays manufactured by the DNA Array facility, Fred Hutchinson CRC) |
| CH1_MEAN |
median signal at 635 nm |
| CH1_BKD_MEAN |
median background signal at 635 nm |
| CH2_MEAN |
median signal at 532 nm |
| CH2_BKD_MEAN |
median background signal at 532 nm |
| VALUE |
First compute l = log2(median 635 - median background 635) - log2(median 532 - median background 532). Do this for every spot on chip c. Next compute m, the mean of these l values over all spots on chip c. Now subtract m from every l value on chip c to get the final the VALUE here; if the SAMPLE has Cy5 in the name, -n is the VALUE. NULL indicates missing data due to a misshapen spot (FLAG < 0) or saturated signal. |
| FLAG |
GenePix flag; 0 means okay, anything else unusable |
